| Publication Information (EuropePMC) | |
| Title | Evaluation of a Multiethnic Polygenic Risk Score Model for Prostate Cancer. |
| PubMed ID | 33792693(Europe PMC) |
| doi | 10.1093/jnci/djab058 |
| Publication Date | April 1, 2021 |
| Journal | J Natl Cancer Inst |
| Author(s) | Plym A, Penney KL, Kalia S, Kraft P, Conti DV, Haiman C, Mucci LA, Kibel AS. |
Polygenic Score ID & Name
|
PGS Publication ID (PGP)
|
Reported Trait
|
Mapped Trait(s) (Ontology)
|
Number of Variants
|
Ancestry distribution GWAS Dev Eval |
Scoring File (FTP Link)
|
|---|---|---|---|---|---|---|
| PGS000662 (GRS.PCa.269) | PGP000122 | Conti DV et al. Nat Genet (2021) | Prostate cancer | prostate carcinoma | 269 | - | https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000662/ScoringFiles/PGS000662.txt.gz |
PGS Performance Metric ID (PPM) |
Evaluated Score
|
PGS Sample Set ID (PSS) |
Performance Source
|
Trait
|
PGS Effect Sizes (per SD change) |
Classification Metrics
|
Other Metrics
|
Covariates Included in the Model
|
PGS Performance: Other Relevant Information |
|---|---|---|---|---|---|---|---|---|---|
| PPM001951 | PGS000662 (GRS.PCa.269) | PSS000976| European Ancestry| 12,472 individuals | PGP000168 | Plym A et al. J Natl Cancer Inst (2021) |Ext. | Reported Trait: Prevalent prostate cancer | OR: 2.04 | — | Odds ratio (OR, top 10% vs. middle 20%): 3.89 [3.24, 4.68] | Age at blood collection, genotyping platform, PCs(1-10) | Only 261 of the original 269 SNPs were available for analysis due to no imputation of the X chromoso... me.Show more |
| PPM001952 | PGS000662 (GRS.PCa.269) | PSS000976| European Ancestry| 12,472 individuals | PGP000168 | Plym A et al. J Natl Cancer Inst (2021) |Ext. | Reported Trait: Prevalent prostate cancer | — | — | Odds ratio (OR, bottom 10% vs. middle 20%): 0.34 [0.25, 0.46] | Age at blood collection, genotyping platform, PCs(1-10) | Only 261 of the original 269 SNPs were available for analysis due to no imputation of the X chromoso... me.Show more |
| PPM001953 | PGS000662 (GRS.PCa.269) | PSS000976| European Ancestry| 12,472 individuals | PGP000168 | Plym A et al. J Natl Cancer Inst (2021) |Ext. | Reported Trait: Elevated prostate specific antigen | OR: 1.54 | — | — | Age at blood collection, genotyping platform, PCs(1-10) | Only 261 of the original 269 SNPs were available for analysis due to no imputation of the X chromoso... me.Show more |
| PPM001954 | PGS000662 (GRS.PCa.269) | PSS000975| African Ancestry| 524 individuals | PGP000168 | Plym A et al. J Natl Cancer Inst (2021) |Ext. | Reported Trait: Prevalent prostate cancer | — | — | Odds ratio (OR, top 10% vs. middle 20%): 3.81 [1.48, 10.19] | Age at blood collection, genotyping platform, PCs(1-2) | Only 261 of the original 269 SNPs were available for analysis due to no imputation of the X chromoso... me.Show more |
| PPM001955 | PGS000662 (GRS.PCa.269) | PSS000975| African Ancestry| 524 individuals | PGP000168 | Plym A et al. J Natl Cancer Inst (2021) |Ext. | Reported Trait: Prevalent prostate cancer | — | — | Odds ratio (OR, bottom 10% vs. middle 20%): 0.15 [0.01, 0.92] | Age at blood collection, genotyping platform, PCs(1-2) | Only 261 of the original 269 SNPs were available for analysis due to no imputation of the X chromoso... me.Show more |
PGS Sample Set ID (PSS) |
Phenotype Definitions and Methods
|
Participant Follow-up Time
|
Sample Numbers
|
Age of Study Participants
|
Sample Ancestry
|
Additional Ancestry Description
|
Cohort(s)
|
Additional Sample/Cohort Information
|
|---|---|---|---|---|---|---|---|---|
| PSS000975 | Cases were defined as having a biopsy-confirmed prostate cancer documented by a pathology report or ... at least two prostate cancer-related billing codes any time before or within 6 months of the date of blood collection.Show more | — | [ ,
100.0 % Male samples | — | African unspecified | — | MGBB | Formerly known as Partners healthcare Biobank (PHB) |
| PSS000976 | Cases were defined as having a biopsy-confirmed prostate cancer documented by a pathology report or ... at least two prostate cancer-related billing codes any time before or within 6 months of the date of blood collection.Show more | — | [ ,
100.0 % Male samples | — | European | — | MGBB | Formerly known as Partners healthcare Biobank (PHB) |